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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactctgattcctcctttcaatttagaatttcaatcttccttggggtagatatagtgtgtaaaagtgcaagcgttactagagggctatctagtgtgtttttgctgatgtgatatttttgcgcagGGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGATCATGTGTATGATTGGGGAACGCAGTTACGAGATGAAATCCTCCGGATG

Basic information

species Physcomitrella patens
transcript PP1S7_147V6.3
intron # 13
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|18334039|gb|BJ166055.1|BJ166055
EST:     GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG                         GGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
genomic: GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAGgtactctgat ... ttttgcgcagGGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
EST: gi|67695856|gb|BJ956089.1|BJ956089
EST:     GGATTTTGGCCGTTTCCATGGGANCACGTTGCACAG                         GGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
genomic: GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAGgtactctgat ... ttttgcgcagGGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
EST: gi|18338429|gb|BJ170453.1|BJ170453
EST:     TCAGGGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG                         GGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
genomic: TCAGGGATTTTGGCCGTTTCCATGGGACCACGTTGCACAGgtactctgat ... ttttgcgcagGGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
EST: gi|37846837|gb|BJ604845.1|BJ604845
EST:     CACTCAGGGATTTTGGCCGTTTCCATGGGACCACGTTGCACCAG                         GGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGA
genomic: CACTCAGGGATTTTGGCCGTTTCCATGGGACCACGTTGCA-CAGgtactctgat ... ttttgcgcagGGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGA
EST: gi|37825955|gb|BJ584021.1|BJ584021
EST:     GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG                         GGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
genomic: GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAGgtactctgat ... ttttgcgcagGGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
EST: gi|37822374|gb|BJ580440.1|BJ580440
EST:     GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG                         GGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
genomic: GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAGgtactctgat ... ttttgcgcagGGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
EST: gi|37824706|gb|BJ582772.1|BJ582772
EST:     GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG                         GGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
genomic: GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAGgtactctgat ... ttttgcgcagGGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
EST: gi|37834555|gb|BJ592567.1|BJ592567
EST:     GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG                         GGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
genomic: GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAGgtactctgat ... ttttgcgcagGGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
EST: gi|18341353|gb|BJ173388.1|BJ173388
EST:     GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG                         GGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
genomic: GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAGgtactctgat ... ttttgcgcagGGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
EST: gi|37822493|gb|BJ580559.1|BJ580559
EST:     GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG                         GGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT
genomic: GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAGgtactctgat ... ttttgcgcagGGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcgttactagagggctatctagtgtgtttttgctgatgtgatatttttgcgcagGGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGATCATGTGTATGATTGGGGAACGCAGTTACGAGATGAAATCCTCCGGATG
                               tgctgat  putative branch site (score: 3)
                                          tattttt  putative PPT
                                       tgatattttt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactctgattcctcctttcaatttagaatttcaatcttccttggggtagatatagtgtgtaaaagtgcaagcgttactagagggctatctagtgtgtttttgctgatgtgatatttttgcgcagGGTTACGCTTATATCCTCACACACCCAGGCCAACCCTGTGTGTTTTGGGATCATGTGTATGATTGGGGAACGCAGTTACGAGATGAAATCCTCCGGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG